Analysis of the algorithm: From rankings to backup genes.

Ranking section

Table 1. Performance summary for every kernel and net before integration.

Net Kernel tpr_down_ci_0.95 tpr_up_ci_0.95 fpr_down_ci_0.95 fpr_up_ci_0.95 f
genetic_interaction_effect_bicor ct 0.0323785803237858 0.051681195516812 0.000587995669092975 0.00200359390242595 0.0431519699812383
genetic_interaction_effect_bicor el 0.00186799501867995 0.00933997509339975 0.000123803372533045 0.00259189777344211 0.00932159502848265
genetic_interaction_effect_bicor ka 0.0330012453300125 0.0523038605230386 0.000429861282334402 0.00102861721857144 0.0520361990950226
genetic_interaction_effect_bicor rf 0.0317559153175592 0.051681195516812 0.000589603679126958 0.00208994404125082 0.0431789737171464
genetic_interaction_effect ct 0.0361145703611457 0.0591531755915318 0.000717145674989012 0.00166966381870223 0.049421332499218
genetic_interaction_effect el 0.0112079701120797 0.0242839352428394 0.000548331421588071 0.00169699998927993 0.0186255619781631
genetic_interaction_effect ka 0.0348692403486924 0.0579234122042341 0.000454517436188802 0.000956913371139436 0.0592203898050974
genetic_interaction_effect rf 0.0354919053549191 0.0579234122042341 0.000707497614785116 0.00178600334466087 0.049421332499218
genetic_interaction_effect_spearman ct 0.0361145703611457 0.0560398505603985 0.000571352765241255 0.00161718909125993 0.044578313253012
genetic_interaction_effect_spearman el 0.0024906600249066 0.00933997509339975 0.000308134922761918 0.00417612265900539 0.00661035622475211
genetic_interaction_effect_spearman ka 0.0398349937733499 0.062266500622665 0.000450242809515131 0.00134398818648628 0.0616287600880411
genetic_interaction_effect_spearman rf 0.0354919053549191 0.0566625155666252 0.000569744755207273 0.00160061318782629 0.044578313253012
genetic_interaction_effect_umap ct 0.0099626400996264 0.0224315068493151 0.000478624186614924 0.00195890462356485 0.0197585071350165
genetic_interaction_effect_umap el 0.0541718555417186 0.0784557907845579 0.0423082850036984 0.0635244095923159 0.00229792123236665
genetic_interaction_effect_umap ka 0.0112079701120797 0.024906600249066 0.000477029576664558 0.00320552780249349 0.0204552952820851
genetic_interaction_effect_umap rf 0.0087173100871731 0.0224159402241594 0.000478088183270264 0.00224172678837516 0.0202626641651032
genetic_interaction_exprs_bicor ct 0.0317745803357314 0.0515587529976019 0.000852850923442714 0.00197809127843331 0.0362429811128127
genetic_interaction_exprs_bicor el 0.01378896882494 0.026978417266187 0.0019289245348496 0.00636265874773567 0.00962596259625963
genetic_interaction_exprs_bicor ka 0.0281774580335731 0.0473621103117506 0.000370722918715281 0.000999861291515217 0.0478325859491779
genetic_interaction_exprs_bicor rf 0.0311750599520384 0.0515587529976019 0.000863189604185799 0.0019728832646924 0.0361599185128597
genetic_interaction_exprs ct 0.0401678657074341 0.0641486810551559 0.00122980025462546 0.00209663804665452 0.0384944396920445
genetic_interaction_exprs el 0.0473471223021583 0.0695443645083933 0.00704358076211289 0.0106666438064083 0.0108896996912714
genetic_interaction_exprs ka 0.0359712230215827 0.0581534772182254 0.000329497106974149 0.000940613689650851 0.0633829705994654
genetic_interaction_exprs rf 0.0413669064748201 0.0641486810551559 0.00123643918303281 0.00215337187951028 0.0383795309168443
genetic_interaction_exprs_spearman el 0.00239808153477218 0.00959232613908873 7.83780285760104e-05 0.00179969102556103 0.0104547830632514
genetic_interaction_exprs_spearman ka 0.0311750599520384 0.0503747002398081 0.000393424186531458 0.00121498835415937 0.0493653032440056
genetic_interaction_exprs_spearman rf 0.0299760191846523 0.0503597122302158 0.000903332561584763 0.00192140901007003 0.0336996336996337
genetic_interaction_exprs_umap ct 0.0287769784172662 0.0479616306954436 0.000506324642825652 0.00173822615051985 0.0393423370522607
genetic_interaction_exprs_umap el 0.00119904076738609 0.00839328537170264 0.00231626411126792 0.00729191535791688 0.00194955525770684
genetic_interaction_exprs_umap ka 0.0275779376498801 0.0467625899280575 0.0004726788114797 0.00153881336696026 0.0418544752092724
genetic_interaction_exprs_umap rf 0.02996103117506 0.0485611510791367 0.000663493215917546 0.00173062038787843 0.0393423370522607

Table 2. Performance summary for every kernel after integration

Integration Kernel tpr_down_ci_0.95 tpr_up_ci_0.95 fpr_down_ci_0.95 fpr_up_ci_0.95 f
integration_mean_by_presence ct 0.75 1 0 1 0.947368421052632
integration_mean_by_presence el 1 1 0 0 1
integration_mean_by_presence ka 1 1 0 0 1
integration_mean_by_presence node2vec 0.75 1 0 0.666666666666667 0.947368421052632
integration_mean_by_presence rf 0.85 1 0 1 0.974358974358974
mean ct 0.75 1 0 1 0.947368421052632
mean el 1 1 0 0 1
mean ka 0.9 1 0 0.5 0.975609756097561
mean node2vec 0.8 1 0 0.833333333333333 0.930232558139535
mean rf 0.8 1 0 0.666666666666667 0.952380952380952

Backup Pairs Coverage By Layer Non integrated

Backup Pairs Coverage By Layer Integrated

Distribution of ranks in dataset by non integrated kernels

Distribution of ranks in dataset by Integrated kernels

ROC-AUCs for Non-integrated kernel and layer

ROC-AUCS for integrated kernels

CDF plots of non integrated kernels

ROC plots of non integrated kernels